Variant report

Variant	rs9409609
Chromosome Location	chr9:94339510-94339511
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10114204	0.89[ASN][1000 genomes]
rs10116888	0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1021439	0.85[GIH][hapmap];0.82[LWK][hapmap]
rs10992025	0.85[GIH][hapmap];0.82[LWK][hapmap]
rs12336409	0.87[ASN][1000 genomes]
rs12338549	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs12340405	0.85[GIH][hapmap]
rs12340837	0.85[GIH][hapmap]
rs12341194	0.89[ASN][1000 genomes]
rs16907611	0.83[CHB][hapmap]
rs1890975	0.81[CHB][hapmap]
rs4743841	0.89[ASN][1000 genomes]
rs4743843	0.81[GIH][hapmap]
rs4743844	0.82[CHB][hapmap]
rs4743846	0.83[CHB][hapmap]
rs4744058	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744061	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4744062	0.83[CHB][hapmap]
rs4744064	0.83[CHB][hapmap]
rs4744070	0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4744087	0.83[CHB][hapmap]
rs61667734	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6479365	0.89[ASN][1000 genomes]
rs7847068	0.85[GIH][hapmap]
rs7850575	0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs902923	0.87[MEX][hapmap]
rs9409427	0.80[CEU][hapmap]
rs9409429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9409430	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9409606	0.93[CEU][hapmap];0.96[GIH][hapmap];0.96[TSI][hapmap];0.83[EUR][1000 genomes]
rs9409607	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9409608	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9409610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9409609	BICD2	cis	parietal	SCAN
rs9409609	LOC440173	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94333600-94339600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:94335000-94339600	Weak transcription	Brain Germinal Matrix	brain
3	chr9:94335400-94339600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr9:94335400-94339600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:94335600-94347000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr9:94335800-94339800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr9:94335800-94339800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:94335800-94340000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr9:94335800-94344800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr9:94336200-94339800	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr9:94336400-94340000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr9:94337000-94339600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:94338400-94340400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr9:94338400-94341400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:94338600-94339800	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr9:94339200-94341000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr9:94339400-94340200	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr9:94339400-94341000	Enhancers	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links